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BenLangmead / bowtie2

A fast and sensitive gapped read aligner
GNU General Public License v3.0
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Conda install uses version 2.2.5 #397

Open ryandikdan opened 1 year ago

ryandikdan commented 1 year ago

When I created a new conda environment and ran conda install bowtie2 -c bioconda it installed version 2.2.5. I am interested in using the multithreading with the index builder, which I believe was fixed after this version. I see that the version listed on the anaconda website is 2.4.5. https://anaconda.org/bioconda/bowtie2 Is there something that needs to be adjusted through bioconda? I'm using WSL2 with ubuntu on a Win 11 machine. Otherwise, everything else works fine.

ryandikdan commented 1 year ago

It seems that when I chose different python versions for the conda environment it gives me different versions of bowtie2. I'm not sure why this would be the case. When I made an environment with python 3.8 it gave me 2.4.1 which can do multithreading, but I imagine there's another underlying issue here.

Alexamk commented 2 months ago

Running into similar issues. When trying to enforce installation of the latest version (2.5.3 at time of writing), I get the error that there are conflicting dependencies even when I try to install it in a clean environment without anything else installed.

`Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: failed with repodata from current_repodata.json, will retry with next repodata source. Collecting package metadata (repodata.json): done Solving environment: failed with initial frozen solve. Retrying with flexible solve. Solving environment: - Found conflicts! Looking for incompatible packages. This can take several minutes. Press CTRL-C to abort. failed

UnsatisfiableError:

`

The error is left blank. It would be nice to use >2.2.5 through conda